miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds

Timoneda, Oriol; Balcells, Ingrid; Núñez, José I.; Egea, Raquel; Vera, Gonzalo; Castelló, Anna; Axelsson, Tomas; Sánchez, Armand

doi:10.1371/journal.pone.0055402

Cited by 25 publications

(26 citation statements)

References 83 publications

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“…Expression of 125 miRNAs in kidney varied among pig breeds, including the Iberian breed, European Wild Boar ancestor, Landrace, Large White, Piétrain, Meishan and Vietnamese breeds10. In skeletal muscle, 54 miRNAs were differentially expressed in Lantang and Landrace pigs and in adipose tissues, the level of 48 miRNAs varied in Lantang and Landrace pigs9.…”

Section: Resultsmentioning

confidence: 99%

MicroRNA in sperm from Duroc, Landrace and Yorkshire boars

Kasimanickam

Kastelic

2016

Sci Rep

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Sperm contain microRNAs (miRNAs), which may have roles in epigenetic control. Regarding phylogenetic relationships among various swine breeds, Yorkshire and Landrace, are considered phenotypically and genetically very similar, but distinctly different from Duroc. The objective of the present study was to compare abundance of boar sperm miRNAs in these three breeds. Overall, 252 prioritized miRNAs were investigated using real-time PCR; relative expression of miRNAs in sperm was similar in Yorkshire and Landrace boars, but significantly different compared to Duroc. Seventeen miRNAs (hsa-miR-196a-5p, hsa-miR-514a-3p, hsa-miR-938, hsa-miR-372-3p, hsa-miR-558, hsa-miR-579-3p, hsa-miR-595, hsa-miR-648, hsa-miR-524-3p, hsa-miR-512-3p, hsa-miR-429, hsa-miR-639, hsa-miR-551a, hsa-miR-624-5p, hsa-miR-585-3p, hsa-miR-508-3p and hsa-miR-626) were down-regulated (P < 0.05; fold regulation ≤−2) in Yorkshire and Landrace sperm, compared to Duroc sperm. Furthermore, three miRNAs (hsa-miR-9-5p, hsa-miR-150-5p, and hsa-miR-99a-5p) were significantly up-regulated in Yorkshire and Landrace sperm compared to Duroc sperm, However, 240 miRNAs were not significantly different (within + 2 fold) between Yorkshire and Landrace sperm. We concluded that miRNAs in sperm were not significantly different between Yorkshire and Landrace boars, but there were significant differences between those two breeds and Duroc boars. Furthermore, integrated target genes for selected down-regulated miRNAs (identified via an in-silico method) appeared to participate in spermatogenesis and sperm functions.

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Section: Resultsmentioning

confidence: 99%

MicroRNA in sperm from Duroc, Landrace and Yorkshire boars

Kasimanickam

Kastelic

2016

Sci Rep

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“…The data includes results from several studies where the microRNA primers have been tested experimentally [16-20]. In total, data for 16 primer pairs and 47 single primers designed by miRprimer and predicted to be the best performing primers (highest score) combined with a manually selected primer were available.…”

Section: Resultsmentioning

confidence: 99%

A tool for design of primers for microRNA-specific quantitative RT-qPCR

2014

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BackgroundMicroRNAs are small but biologically important RNA molecules. Although different methods can be used for quantification of microRNAs, quantitative PCR is regarded as the reference that is used to validate other methods. Several commercial qPCR assays are available but they often come at a high price and the sequences of the primers are not disclosed. An alternative to commercial assays is to manually design primers but this work is tedious and, hence, not practical for the design of primers for a larger number of targets.ResultsI have developed the software miRprimer for automatic design of primers for the method miR-specific RT-qPCR, which is one of the best performing microRNA qPCR methods available. The algorithm is based on an implementation of the previously published rules for manual design of miR-specific primers with the additional feature of evaluating the propensity of formation of secondary structures and primer dimers. Testing of the primers showed that 76 out of 79 primers (96%) worked for quantification of microRNAs by miR-specific RT-qPCR of mammalian RNA samples. This success rate corresponds to the success rate of manual primer design. Furthermore, primers designed by this method have been distributed to several labs and used successfully in published studies.ConclusionsThe software miRprimer is an automatic and easy method for design of functional primers for miR-specific RT-qPCR. The application is available as stand-alone software that will work on the MS Windows platform and in a developer version written in the Ruby programming language.

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“…Several are highly-expressed in big solid organs 1,44,[74][75][76] . The miR-200b and miR-214 are key miRNAs in tooth development 77,78 .…”

Section: Mirnas In Pig Adipose Tissue (Table 2)mentioning

confidence: 99%

Expression and Regulation Profile of Mature MicroRNA in the Pig: Relevance to Xenotransplantation

Song

Cooper

Cai

et al. 2017

Preprint

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The pig is an important source of meat production and provides a valuable model for certain human diseases. MicroRNA (miRNA), which is non-coding RNA and regulates gene expression at the posttranscriptional level, plays a critical role in various biological processes.Studies on identification and function of mature miRNAs in multiple pig tissues are increasing, yet the literature is limited. Therefore, we reviewed current research to determine the miRNAs expressed in specific pig tissues that are involved in carcass values (including muscle and adipocytes), reproduction (including pituitary, testis, and ovary), and development of some solid organs (e.g., brain, lung, kidney, and liver). We also discuss the possible regulating mechanisms of miRNA. Finally, as pig organs are suitable candidates for xenotransplantation, biomarkers of their miRNA in xenotransplantation were evaluated.

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miRNA Expression Profile Analysis in Kidney of Different Porcine Breeds

Cited by 25 publications

References 83 publications

MicroRNA in sperm from Duroc, Landrace and Yorkshire boars

MicroRNA in sperm from Duroc, Landrace and Yorkshire boars

A tool for design of primers for microRNA-specific quantitative RT-qPCR

Expression and Regulation Profile of Mature MicroRNA in the Pig: Relevance to Xenotransplantation

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